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Tsen34 tRNA splicing endonuclease subunit 34 [ Rattus norvegicus (Norway rat) ]

Gene ID: 292534, updated on 11-Apr-2024

Summary

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Official Symbol
Tsen34provided by RGD
Official Full Name
tRNA splicing endonuclease subunit 34provided by RGD
Primary source
RGD:1359564
See related
Ensembl:ENSRNOG00000059572 AllianceGenome:RGD:1359564
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
LENG5; SEN34; Tsen34l1
Summary
Predicted to enable tRNA-intron endonuclease activity. Predicted to be involved in tRNA-type intron splice site recognition and cleavage. Predicted to be located in nucleoplasm. Predicted to be part of tRNA-intron endonuclease complex. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 2C. Orthologous to human TSEN34 (tRNA splicing endonuclease subunit 34). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Heart (RPKM 183.6), Kidney (RPKM 182.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
1q12
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (74432687..74440553, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (65517324..65525194, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (64023924..64031756, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene leukocyte immunoglobulin like receptor B1 Neighboring gene paired Ig-like receptor B Neighboring gene ribosomal protein S9 Neighboring gene membrane bound O-acyltransferase domain containing 7 Neighboring gene transmembrane channel-like 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Handling tRNA introns, archaeal way and eukaryotic way. Yoshihisa T. Front Genet, 2014. PMID 25071838, Free PMC Article
  2. Identification of a human endonuclease complex reveals a link between tRNA splicing and pre-mRNA 3' end formation. Paushkin SV, et al. Cell, 2004 Apr 30. PMID 15109492
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC94712

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables lyase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables tRNA-intron endonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in tRNA-type intron splice site recognition and cleavage IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
part_of tRNA-intron endonuclease complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
tRNA-splicing endonuclease subunit Sen34
Names
TSEN34 tRNA splicing endonuclease subunit
leukocyte receptor cluster (LRC) member 5
tRNA splicing endonuclease 34 homolog
tRNA splicing endonuclease subunit 34-like 1
tRNA-splicing endonuclease subunit Sen34-like
NP_001006969.1
NP_001406968.1
XP_006228137.1
XP_008757061.1
XP_017444128.1
XP_038959609.1
XP_038959611.1
XP_063139005.1
XP_063139006.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001006968.2 → NP_001006969.1  tRNA-splicing endonuclease subunit Sen34

    See identical proteins and their annotated locations for NP_001006969.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/TrEMBL
    A0A0G2K071, F1LSA6, Q5XIB7
    Related
    ENSRNOP00000071330.1, ENSRNOT00000084846.2
    Conserved Domains (1) summary
    cd22363
    Location:220 → 308
    tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

  2. NM_001313942.1 → NP_001300871.1  tRNA-splicing endonuclease subunit Sen34

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/TrEMBL
    A0A0G2K071, F1LSA6, Q5XIB7

  3. NM_001420039.1 → NP_001406968.1  tRNA-splicing endonuclease subunit Sen34

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/TrEMBL
    A0A0G2K071, F1LSA6, Q5XIB7

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086019.1 Reference GRCr8

    Range
    74432687..74440553 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039103683.2 → XP_038959611.1  tRNA-splicing endonuclease subunit Sen34 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K071, F1LSA6, Q5XIB7
    Conserved Domains (1) summary
    cd22363
    Location:220 → 308
    tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

  2. XM_063282935.1 → XP_063139005.1  tRNA-splicing endonuclease subunit Sen34 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K071, F1LSA6, Q5XIB7

  3. XM_017588639.3 → XP_017444128.1  tRNA-splicing endonuclease subunit Sen34 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K071, F1LSA6, Q5XIB7
    Conserved Domains (1) summary
    cd22363
    Location:220 → 308
    tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

  4. XM_006228075.5 → XP_006228137.1  tRNA-splicing endonuclease subunit Sen34 isoform X1

    See identical proteins and their annotated locations for XP_006228137.1

    UniProtKB/TrEMBL
    A0A0G2K071, F1LSA6, Q5XIB7
    Conserved Domains (1) summary
    cd22363
    Location:220 → 308
    tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

  5. XM_039103681.2 → XP_038959609.1  tRNA-splicing endonuclease subunit Sen34 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K071, F1LSA6, Q5XIB7
    Conserved Domains (1) summary
    cd22363
    Location:220 → 308
    tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

  6. XM_063282936.1 → XP_063139006.1  tRNA-splicing endonuclease subunit Sen34 isoform X2

  7. XM_008758839.4 → XP_008757061.1  tRNA-splicing endonuclease subunit Sen34 isoform X2

    See identical proteins and their annotated locations for XP_008757061.1

    Conserved Domains (2) summary
    pfam01974
    Location:219 → 250
    tRNA_int_endo; tRNA intron endonuclease, catalytic C-terminal domain
    pfam03985
    Location:102 → 168
    Paf1; Paf1
Nucleotide Protein Strain
Heading Accession and Version

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